[1] "2025-04-29 18:53:30 MDT" [1] "1306" "130606" "d157" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130606a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-29 18:53:34 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.789, ave o2scale2 = 0.735" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "114 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.789, ave o2scale2 = 0.735" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "114 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:53:35 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:53:35 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:53:55 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:53:57 MDT" [1] "reading in recalculated plot titles" [1] "Removed 114 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1322 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:54:06 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -447.7" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625.1" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.288 co2off = 393.13 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.86 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 4 [3,] 5 6 [4,] 7 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 10 0.001788831 0.008048466 0.005614037 1 -32.79409 245.28360 4 2 252 261 0.203589931 0.209848987 0.207414858 3 -31.08856 244.12733 5 4 262 271 0.210544358 0.216804109 0.214369806 3 40.52066 156.63121 7 3 281 290 0.224454688 0.230713744 0.229670573 3 77.87772 87.33454 9 4 513 522 0.412254630 0.418513918 0.416079644 2 40.87419 156.21145 10 2 523 532 0.419209491 0.425468721 0.423034527 2 -30.56229 244.63110 12 2 793 802 0.620896962 0.627155903 0.624721759 3 -30.53646 246.76421 13 4 803 811 0.628547135 0.634110648 0.632024272 3 40.88685 159.71517 14 3 812 821 0.634805961 0.641065480 0.640022237 3 78.21573 86.29459 18 4 1082 1091 0.829536979 0.835796209 0.833361972 2 41.24862 157.89793 19 2 1092 1101 0.836491522 0.842750955 0.840316522 2 -29.72807 247.92744 20 5 1102 1111 0.843446267 0.849705035 0.848662066 NA 28.82712 135.71550 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.280566 1.374193 -1.851762e-03 0.1561066 0.018184138 3.0178306 4 1.271884 1.364986 1.545624e-03 -0.7649093 0.018145094 2.1332137 5 1.271800 1.364897 4.959631e-03 -0.1676157 0.018917555 2.6672838 7 1.271120 1.364138 2.707164e-03 2.1152858 0.009904285 3.1996771 9 1.267623 1.360353 -1.612363e-05 1.0675679 0.010632613 5.4354998 10 1.267726 1.360525 -6.378459e-03 0.8292305 0.019669817 2.3986526 12 1.266632 1.359400 6.522174e-03 1.8777444 0.020864142 5.2935791 13 1.266489 1.359285 4.361783e-03 1.1143180 0.009648096 2.8104811 14 1.266289 1.359045 7.046353e-03 -0.1484191 0.020731272 0.8034333 18 1.262027 1.354667 -1.115057e-03 0.4818875 0.006522492 3.0774501 19 1.262004 1.354635 -4.665836e-03 0.2174999 0.020365917 1.8517354 20 1.261876 1.354502 -6.666667e-02 -2.2002498 0.047199378 3.2613649 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 383.223 co2l1 = 0.287 co2l0 = 0.176" [1] "co2l0 = -132.01 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "81 out of 265 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "184 out of 1138 1-min values rejected as stack air" [1] "184 out of 949 Line 1 1-min values rejected as stack air" [1] "0 out of 189 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"